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Ibrahim SRM, Bagalagel AA, Diri RM, Noor AO, Bakhsh HT, Muhammad YA, Mohamed GA, Omar AM. Exploring the Activity of Fungal Phenalenone Derivatives as Potential CK2 Inhibitors Using Computational Methods. J Fungi (Basel) 2022; 8:jof8050443. [PMID: 35628699 PMCID: PMC9143076 DOI: 10.3390/jof8050443] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2022] [Revised: 04/21/2022] [Accepted: 04/21/2022] [Indexed: 02/06/2023] Open
Abstract
Cancer represents one of the most prevalent causes of global death. CK2 (casein kinase 2) activation boosted cancer proliferation and progression. Therefore, CK2 inhibition can have a crucial role in prohibiting cancer progression and enhancing apoptosis. Fungi have gained vast interest as a wealthy pool of anticancer metabolites that could particularly target various cancer progression-linked signaling pathways. Phenalenones are a unique class of secondary metabolites that possess diverse bioactivities. In the current work, the CK2 inhibitory capacity of 33 fungal phenalenones was explored using computational studies. After evaluating the usefulness of the compounds as enzyme inhibitors by ADMET prediction, the compounds were prepared for molecular docking in the CK2-α1 crystal structure (PDB: 7BU4). Molecular dynamic simulation was performed on the top two scoring compounds to evaluate their binding affinity and protein stability through a simulated physiological environment. Compound 19 had a superior binding affinity to the co-crystallized ligand (Y49). The improved affinity can be attributed to the fact that the aliphatic chain makes additional contact with Asp120 in a pocket distant from the active site.
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Affiliation(s)
- Sabrin R. M. Ibrahim
- Department of Chemistry, Preparatory Year Program, Batterjee Medical College, Jeddah 21442, Saudi Arabia
- Department of Pharmacognosy, Faculty of Pharmacy, Assiut University, Assiut 71526, Egypt
- Correspondence: ; Tel.: +966-581183034
| | - Alaa A. Bagalagel
- Department of Pharmacy Practice, Faculty of Pharmacy, King Abdulaziz University, Jeddah 21589, Saudi Arabia; (A.A.B.); (R.M.D.); (A.O.N.); (H.T.B.)
| | - Reem M. Diri
- Department of Pharmacy Practice, Faculty of Pharmacy, King Abdulaziz University, Jeddah 21589, Saudi Arabia; (A.A.B.); (R.M.D.); (A.O.N.); (H.T.B.)
| | - Ahmad O. Noor
- Department of Pharmacy Practice, Faculty of Pharmacy, King Abdulaziz University, Jeddah 21589, Saudi Arabia; (A.A.B.); (R.M.D.); (A.O.N.); (H.T.B.)
| | - Hussain T. Bakhsh
- Department of Pharmacy Practice, Faculty of Pharmacy, King Abdulaziz University, Jeddah 21589, Saudi Arabia; (A.A.B.); (R.M.D.); (A.O.N.); (H.T.B.)
| | - Yosra A. Muhammad
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, King Abdulaziz University, Jeddah 21589, Saudi Arabia; (Y.A.M.); (A.M.O.)
- Center for Artificial Intelligence in Precision Medicines, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Gamal A. Mohamed
- Department of Natural Products and Alternative Medicine, Faculty of Pharmacy, King Abdulaziz University, Jeddah 21589, Saudi Arabia;
| | - Abdelsattar M. Omar
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, King Abdulaziz University, Jeddah 21589, Saudi Arabia; (Y.A.M.); (A.M.O.)
- Center for Artificial Intelligence in Precision Medicines, King Abdulaziz University, Jeddah 21589, Saudi Arabia
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Al-Azhar University, Cairo 11884, Egypt
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Ossola R, Jönsson OM, Moor K, McNeill K. Singlet Oxygen Quantum Yields in Environmental Waters. Chem Rev 2021; 121:4100-4146. [PMID: 33683861 DOI: 10.1021/acs.chemrev.0c00781] [Citation(s) in RCA: 83] [Impact Index Per Article: 27.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Singlet oxygen (1O2) is a reactive oxygen species produced in sunlit waters via energy transfer from the triplet states of natural sensitizers. There has been an increasing interest in measuring apparent 1O2 quantum yields (ΦΔ) of aquatic and atmospheric organic matter samples, driven in part by the fact that this parameter can be used for environmental fate modeling of organic contaminants and to advance our understanding of dissolved organic matter photophysics. However, the lack of reproducibility across research groups and publications remains a challenge that significantly limits the usability of literature data. In the first part of this review, we critically evaluate the experimental techniques that have been used to determine ΦΔ values of natural organic matter, we identify and quantify sources of errors that potentially explain the large variability in the literature, and we provide general experimental recommendations for future studies. In the second part, we provide a qualitative overview of known ΦΔ trends as a function of organic matter type, isolation and extraction procedures, bulk water chemistry parameters, molecular and spectroscopic organic matter features, chemical treatments, wavelength, season, and location. This review is supplemented with a comprehensive database of ΦΔ values of environmental samples.
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Affiliation(s)
- Rachele Ossola
- Institute of Biogeochemistry and Pollutant Dynamics (IBP), Department of Environmental Systems Science, ETH Zürich, 8092 Zürich, Switzerland
| | - Oskar Martin Jönsson
- Institute of Biogeochemistry and Pollutant Dynamics (IBP), Department of Environmental Systems Science, ETH Zürich, 8092 Zürich, Switzerland
| | - Kyle Moor
- Utah Water Research Laboratory, Department of Civil and Environmental Engineering, Utah State University, 84322 Logan, Utah, United States
| | - Kristopher McNeill
- Institute of Biogeochemistry and Pollutant Dynamics (IBP), Department of Environmental Systems Science, ETH Zürich, 8092 Zürich, Switzerland
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Baranova AA, Alferova VA, Korshun VA, Tyurin AP. Antibiotics from Extremophilic Micromycetes. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2020; 46:903-971. [PMID: 33390684 PMCID: PMC7768999 DOI: 10.1134/s1068162020060023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/04/2020] [Revised: 05/08/2020] [Accepted: 05/12/2020] [Indexed: 12/03/2022]
Abstract
Extremophilic microorganisms, which are capable of functioning normally at extremely high or low temperatures, pressure, and in other environmental conditions, have been in the focus of microbiologists' attention for several decades due to the biotechnological potential of enzymes inherent in extremophiles. These enzymes (also called extremozymes) are used in the production of food and detergents and other industries. At the same time, the inhabitants of extreme econiches remained almost unexplored for a long time in terms of the chemistry of natural compounds. In recent years, the emergence of new antibiotic-resistant strains of pathogens, which affect humans and animals has become a global problem. The problem is compounded by a strong slowdown in the development of new antibiotics. In search of new active substances and scaffolds for medical chemistry, researchers turn to unexplored natural sources. In recent years, there has been a sharp increase in the number of studies on secondary metabolites produced by extremophiles. From the discovery of penicillin to the present day, micromycetes, along with actinobacteria, are one of the most productive sources of antibiotic compounds for medicine and agriculture. Many authors consider extremophilic micromycetes as a promising source of small molecules with an unusual mechanism of action or significant structural novelty. This review summarizes the latest (for 2018-2019) experimental data on antibiotic compounds, which are produced by extremophilic micromycetes with various types of adaptation. Active metabolites are classified by the type of structure and biosynthetic origin. The data on the biological activity of the isolated metabolites are summarized.
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Affiliation(s)
- A. A. Baranova
- Gause Institute of New Antibiotics, 119021 Moscow, Russia
| | - V. A. Alferova
- Gause Institute of New Antibiotics, 119021 Moscow, Russia
- National Research University, Higher School of Economics, 101000 Moscow, Russia
| | - V. A. Korshun
- Gause Institute of New Antibiotics, 119021 Moscow, Russia
- Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, 117997 Moscow, Russia
- National Research University, Higher School of Economics, 101000 Moscow, Russia
| | - A. P. Tyurin
- Gause Institute of New Antibiotics, 119021 Moscow, Russia
- National Research University, Higher School of Economics, 101000 Moscow, Russia
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Brkljača R, Schneider B, Hidalgo W, Otálvaro F, Ospina F, Lee S, Hoshino M, Fujita M, Urban S. Application of the Crystalline Sponge Method to Revise the Structure of the Phenalenone Fuliginone. Molecules 2017; 22:molecules22020211. [PMID: 28146104 PMCID: PMC6155586 DOI: 10.3390/molecules22020211] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2016] [Accepted: 01/25/2017] [Indexed: 11/16/2022] Open
Abstract
The structure of fuliginone was revised from a phenyl substituted phenalenone to a hydroxyl substituted phenalenone as a result of its re-purification via HPLC with subsequent NMR analysis together with an independent synthesis and analysis of the crystal structure, which was secured via the crystalline sponge method. On-flow High Performance Liquid Chromatography coupled to Nuclear Magnetic Resonance spectroscopy (HPLC-NMR) was employed to confirm the presence of the natural product in the plant extract and to monitor for any possible degradation or conversion of the compound.
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Affiliation(s)
- Robert Brkljača
- School of Science (Applied Chemistry and Environmental Science), RMIT University, GPO Box 2476, Melbourne, Victoria 3001, Australia;
| | - Bernd Schneider
- Max-Planck-Institute for Chemical Ecology, Beutenberg Campus, Hans-Knöll-Str. 8, D-07745 Jena, Germany; (B.S.); (W.H.)
| | - William Hidalgo
- Max-Planck-Institute for Chemical Ecology, Beutenberg Campus, Hans-Knöll-Str. 8, D-07745 Jena, Germany; (B.S.); (W.H.)
| | - Felipe Otálvaro
- Instituto de Química, Síntesis y Biosíntesis de Metabolitos Naturales, Universidad de Antioquia, AA 1226 Medellín, Colombia; (F.Ot.); (F.Os.)
| | - Felipe Ospina
- Instituto de Química, Síntesis y Biosíntesis de Metabolitos Naturales, Universidad de Antioquia, AA 1226 Medellín, Colombia; (F.Ot.); (F.Os.)
| | - Shoukou Lee
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, Hongo, Bunkyo-ku, Tokyo 113-8656, Japan; (S.L.); (M.H.); (M.F.)
| | - Manabu Hoshino
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, Hongo, Bunkyo-ku, Tokyo 113-8656, Japan; (S.L.); (M.H.); (M.F.)
| | - Makoto Fujita
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, Hongo, Bunkyo-ku, Tokyo 113-8656, Japan; (S.L.); (M.H.); (M.F.)
| | - Sylvia Urban
- School of Science (Applied Chemistry and Environmental Science), RMIT University, GPO Box 2476, Melbourne, Victoria 3001, Australia;
- Correspondence: ; Tel.: +61-3-9925-3376
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Ospina F, Hidalgo W, Cano M, Schneider B, Otálvaro F. Synthesis of 8-Phenylphenalenones: 2-Hydroxy-8-(4-hydroxyphenyl)-1H-phenalen-1-one from Eichhornia crassipes. J Org Chem 2016; 81:1256-62. [PMID: 26741281 DOI: 10.1021/acs.joc.5b02559] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
2-Hydroxy-8-(4-hydroxyphenyl)-1H-phenalen-1-one (1), the first reported 8-phenylphenalenone from the roots of Eichhornia crassipes (water hyacinth), was synthesized starting from 2-methoxynaphthalene in 11 steps and with an overall yield of 2%. A cascade Friedel-Crafts/Michael annulation reaction between acryloyl chloride and 2-methoxynaphthalene afforded 9-methoxyperinaphthanone that, after transformation to 9-methoxy-2-(4-methoxyphenyl)-1H-phenalen-1-one by means of standard Suzuki-Miyaura methodology, was subjected to a reductive carbonyl transposition to afford 8-(4-methoxyphenyl)perinaphthanone. Dehydrogenation, epoxidation, and demethylation of the latter afforded 1.
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Affiliation(s)
- Felipe Ospina
- Instituto de Química, Síntesis y Biosíntesis de Metabolitos Naturales, Universidad de Antioquia , AA 1226 Medellín, Colombia
| | - William Hidalgo
- Max Planck Institute für Chemische Ökologie , Beutenberg Campus, Hans-Knöll-Strasse 8, 07745 Jena, Germany
| | - Marisol Cano
- Instituto de Química, Síntesis y Biosíntesis de Metabolitos Naturales, Universidad de Antioquia , AA 1226 Medellín, Colombia
| | - Bernd Schneider
- Max Planck Institute für Chemische Ökologie , Beutenberg Campus, Hans-Knöll-Strasse 8, 07745 Jena, Germany
| | - Felipe Otálvaro
- Instituto de Química, Síntesis y Biosíntesis de Metabolitos Naturales, Universidad de Antioquia , AA 1226 Medellín, Colombia
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Phenalenone-type phytoalexins mediate resistance of banana plants (Musa spp.) to the burrowing nematode Radopholus similis. Proc Natl Acad Sci U S A 2013; 111:105-10. [PMID: 24324151 DOI: 10.1073/pnas.1314168110] [Citation(s) in RCA: 76] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The global yield of bananas-one of the most important food crops-is severely hampered by parasites, such as nematodes, which cause yield losses up to 75%. Plant-nematode interactions of two banana cultivars differing in susceptibility to Radopholus similis were investigated by combining the conventional and spatially resolved analytical techniques (1)H NMR spectroscopy, matrix-free UV-laser desorption/ionization mass spectrometric imaging, and Raman microspectroscopy. This innovative combination of analytical techniques was applied to isolate, identify, and locate the banana-specific type of phytoalexins, phenylphenalenones, in the R. similis-caused lesions of the plants. The striking antinematode activity of the phenylphenalenone anigorufone, its ingestion by the nematode, and its subsequent localization in lipid droplets within the nematode is reported. The importance of varying local concentrations of these specialized metabolites in infected plant tissues, their involvement in the plant's defense system, and derived strategies for improving banana resistance are highlighted.
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Applied biological and physicochemical activity of isoquinoline alkaloids: oxoisoaporphine and boldine. Molecules 2012; 17:10958-70. [PMID: 22971581 PMCID: PMC6268571 DOI: 10.3390/molecules170910958] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2012] [Revised: 08/27/2012] [Accepted: 09/06/2012] [Indexed: 11/29/2022] Open
Abstract
The aim of this study was to determine the electronic influence of substituent groups and annelated rings such as oxazole-oxazinone on the physicochemical and photoprotection, antioxidant capacity, toxicity and singlet oxygen photosensitization biological properties of isoquinoline alkaloid frameworks. Thus, oxoisoaporphine derivatives 1–5 and 3-azaoxoisoaporphine (6), some of them with phenolic structures, did not present any antioxidant capacity, possibly either by formation of keto-enol tautomerism species or the formation of unstable free radicals. Due to the singlet oxygen quantum yields (ΦΔ) near to unity, and greater photostability than phenalenone, oxoisoaporphines 4–6 may be considered as photosensitizers for singlet oxygen production and can be used as new universal study tools. The biological application as antibacterial agents is an important and possible tool in the study of compounds with low cytotoxicity and high reactivity in antineoplastic chemotherapy. On the other hand, when boldine and its annelated derivatives B1–4 are irradiated, a photoprotector effect is observed (SPF = 2.35), even after 30 minutes of irradiation. They also act as photoprotectors in cell fibroblast cultures. No hemolysis was detected for boldine hydrochloride and its salts without irradiation. In solutions irradiated before incubation (at concentrations over 200 ppm) photoproducts were toxic to the nauplii of Artemia salina.
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